Difference between revisions of "Fantom analysis"

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(Automatic synchronization with BioUML)
 
(Automatic synchronization with BioUML)
 
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==== Parameters: ====
 
==== Parameters: ====
  
−
* '''Folder containing ChIP-seq tracks''' – Folder containing ChIP-seq tracks
+
* '''Option''' – Please, select option (i.e. select the concrete session of given analysis).
−
* '''Path to file''' – Path to file
+
* '''Parameters for OPTION_01''' – Parameters for OPTION_01
−
* '''Path to output folder''' – Output folder will be created under this location when it doesn<nowiki>'</nowiki>t exist
+
** '''Path to input folder''' – Path to input folder
 +
* '''Parameters for OPTION_02''' – Parameters for OPTION_02
 +
** '''Path to folder with tracks''' – Path to folder with tracks
 +
** '''Track names''' – Please, select track names
 +
** '''Path to file''' – Path to file
 +
** '''Sequences collection''' – Select a source of nucleotide sequences
 +
*** '''Sequences source''' – Select database to get sequences from or <nowiki>'</nowiki>Custom<nowiki>'</nowiki> to specify sequences location manually
 +
*** '''Sequence collection''' – Specify path to folder containing sequences if <nowiki>'</nowiki>Custom<nowiki>'</nowiki> sequences source is selected
 +
** '''Promoter regions''' – Promoter regions
 +
* '''Parameters for OPTION_03''' – Parameters for OPTION_03
 +
** '''Path to input folder''' – Path to input folder
 +
* '''Parameters for OPTION_04''' – Parameters for OPTION_04
 +
** '''Path to file''' – Path to file
 +
** '''Path to input folder''' – Path to input folder
 +
** '''Cell line''' – Cell line
 +
* '''Path to output folder''' – Path to output folder
  
 
[[Category:Analyses]]
 
[[Category:Analyses]]

Latest revision as of 18:14, 9 December 2020

Analysis title
Default-analysis-icon.png Fantom analysis
Provider
Institute of Systems Biology
Class
FantomAnalysis
Plugin
biouml.plugins.bindingregions (Binding-regions related analyses)

[edit] Description

Analysis of FANTOM expression values by using GTRD peaks

[edit] Parameters:

  • Option – Please, select option (i.e. select the concrete session of given analysis).
  • Parameters for OPTION_01 – Parameters for OPTION_01
    • Path to input folder – Path to input folder
  • Parameters for OPTION_02 – Parameters for OPTION_02
    • Path to folder with tracks – Path to folder with tracks
    • Track names – Please, select track names
    • Path to file – Path to file
    • Sequences collection – Select a source of nucleotide sequences
      • Sequences source – Select database to get sequences from or 'Custom' to specify sequences location manually
      • Sequence collection – Specify path to folder containing sequences if 'Custom' sequences source is selected
    • Promoter regions – Promoter regions
  • Parameters for OPTION_03 – Parameters for OPTION_03
    • Path to input folder – Path to input folder
  • Parameters for OPTION_04 – Parameters for OPTION_04
    • Path to file – Path to file
    • Path to input folder – Path to input folder
    • Cell line – Cell line
  • Path to output folder – Path to output folder
Retrieved from "https://wiki.biouml.org/index.php?title=Fantom_analysis&oldid=8718"
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